VCY Gene
protein-coding GIFtS: 36
GCID: GC0YP016169
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variable charge, Y-linked(Previous names: variable charge, Y chromosome )
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Aliases
for VCY gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
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| Aliases |
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| Variable Charge, Y-Linked1 2 | | Variably Charged Protein Y2 3 | | BPY11 2 3 5 | | Basic Protein On Y Chromosome, 12 | | VCY1A1 2 3 | | Testis-Specific Basic Protein On Y, 12 | | VCY11 2 | | Testis-Specific Basic Protein Y 12 | | Variable Charge, Y Chromosome1 2 | | BPY1B3 | | Basic Charge, Y-Linked 12 3 | | |
Export aliases for VCY gene to outside databasesPrevious GC identifers: GC0YP015485 GC0YM015407 GC0YM015106 GC0YP014607 GC0YP014678 GC0YM010741 |
Summaries
for VCY gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for VCY:
The protein encoded by this gene is a member of a family of human VCX/Y genes. This gene family has multiple members onboth X and Y chromosomes, and all are expressed exclusively in male germ cells. Members of the VCX/Y family share ahigh degree of sequence identity, with the exception that a 30-bp unit is tandemly repeated in X-linked members butoccurs only once in Y-linked members. VCX/Y genes encode small and highly charged proteins of unknown function. Thisgene encodes a small, positively charged protein. The presence of a putative bipartite nuclear localization signalsuggests that this gene encodes a nuclear protein. The genome has two identical copies of this gene within apalindromic region; this record represents the more centromeric copy. (provided by RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: VCY1_HUMAN, O14598Function: May mediate a process in spermatogenesis or may play a role in sex ratio distortion
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Genomic Views
for VCY gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000024.9 NT_011875.12
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the VCY gene promoter:
POU2F2 (Oct-2.1) POU2F2 POU2F2C POU2F1 POU2F1a FOXO1a NF-Y POU2F2B CBF(2) FOXO1
Other transcription factors
Search SABiosciences Chromatin IP Primers for VCY
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat VCY |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: Yq11.221 Ensembl cytogenetic band: Yq11.221 HGNC cytogenetic band: Yq11.221VCY Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome Y GeneLoc Exon Structure GeneLoc location for GC0YP016169: view genomic region
(about GC identifiers)
Start:
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16,168,097 bp from pter |
End:
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16,168,840 bp from pter |
Size:
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744 bases |
Orientation:
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plus strand |
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Proteins
for VCY gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: VCY1_HUMAN, O14598 (See
protein sequence)Recommended Name: Testis-specific basic protein Y 1 Size: 125 amino acids; 12917 DaExplore the universe of human proteins at neXtProt for VCY: NX_O14598
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_O14598
VCY Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_004670.1
ENSEMBL proteins: ENSP00000250823
Human Recombinant Protein Products:
VCY Antibody Products:
Assay Products for VCY: |
Protein
Domains /
Families
for VCY gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
VCY for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry O14598ProtoNet protein and cluster: O14598 UniProtKB/Swiss-Prot: VCY1_HUMAN, O14598Similarity: Belongs to the VCX/VCY family |
Function
for VCY gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
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Function Summary:
UniProtKB/Swiss-Prot: VCY1_HUMAN, O14598Function: May mediate a process in spermatogenesis or may play a role in sex ratio distortion Genatlas biochemistry entry for VCY:variable charge X/Y,basic protein on chromosome Y,1,testis specific,in a AZF deleted region
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for VCY
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for VCY
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: VCY (NM_004679) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for VCY | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VCY |
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Pathways & Interactions
for VCY gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
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Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for VCY
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Drugs & Compounds
for VCY gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for VCY
Search CenterWatch for drugs/clinical trials and news about VCY / VCY1
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Transcripts
for VCY gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
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REFSEQ mRNAs for VCY gene: NM_004679.2 Unigene Cluster for VCY: Variable charge, Y-linked Hs.632284 [show with all ESTs]Unigene Representative Sequence: AF0009791 Ensembl transcript including schematic representation, and UCSC links where relevant: ENST00000250823(uc004ftd.3)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for VCY
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for VCY
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: VCY (NM_004679) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for VCY | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VCY |
Additional cDNA sequence: AF000979.1 BC096729.1 2 DOTS entries: DT.120654203 DT.443460 24/43 AceView cDNA sequences (see all 43): BF478074 BF508070 AI634041 NM_181880 AW193704 AI917448 AI650513 AI672566 BF059317 AF000979 BC056508 AW196662 AI809663 AA357797 AI963982 AA496066 AI621240 BX281130 NM_004679 AI611655 AA759284 AA393129 AI917301 AI341209
GeneLoc Exon Structure
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Expression
for VCY gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| VCY expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See VCY Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for VCY
SOURCE GeneReport for Unigene cluster: Hs.632284
UniProtKB/Swiss-Prot: VCY1_HUMAN, O14598Tissue specificity: Expressed exclusively in testis
SABiosciences Custom PCR Arrays for VCY
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for VCY
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat VCY | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat VCY | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat VCY |
Orthologs
for VCY gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
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--
ENSEMBL Gene Tree for VCY (if available)
TreeFam Gene Tree for VCY (if available) |
Paralogs
for VCY gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for VCY gene
- VCY1B1 2 VCX3B2 VCX2 VCX22 VCX3A2
5 SIMAP similar genes for VCY using alignment to 2 protein entries: VCY1_HUMAN (see all proteins):VCY1B VCX2 VCX3A VCX VCX3B
VCY for paralogs About GeneDecksing
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Genomic Variants
for VCY gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
| | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing VCY |
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Disorders
/ Diseases
for VCY gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
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VCY for disorders About GeneDecksing
OMIM gene information: 400012
OMIM disorders: --
5  diseases for VCY: About MalaCardsx-linked ichthyosis ichthyosis gonadoblastoma y chromosome infertility
infertility
1 disease from the University of Copenhagen DISEASES database for VCY:X-linked ichthyosis Export disorders for VCY gene to outside databases
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Publications
for VCY gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
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PubMed articles for VCY gene integrated from 9 sources:
(articles sorted by number of sources associating them with VCY) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Functional coherence of the human Y chromosome. (PubMed id 9381176)1, 2, 3 Lahn B.T. and Page D.C. (1997)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PubMed id 12815422)1, 2 Skaletsky H.... Page D.C. (2003)
- A shared promoter region suggests a common ancestor for the human VCX/Y, SPANX, and CSAG gene families and the murine CYPT family. (PubMed id 17342728)1 Hansen M.A....Leffers H. (2008)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- A human sex-chromosomal gene family expressed in male germ cells and encoding variably charged proteins. (PubMed id 10607842)1 Lahn B.T. and Page D.C. (2000)
- Toward a complete human genome sequence. (PubMed id 9847074)1 Wilson R. (1998)
- Y Chromosome Infertility (PubMed id 20301513)1 Disteche C.M. (1993)
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External Searches for VCY gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing VCY gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
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Other Databases showing VCY gene
(According to HUGE)
About This Section
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Specialized Databases showing VCY gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for VCY | Pharmacogenomics, SNPs, Pathways |
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About This Section
| Patent Information for VCY gene:
Search GeneIP for patents involving VCY
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for VCY gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
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| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for VCY | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for VCY | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for VCY | | | OriGene Protein Over-expression Lysate for VCY | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for VCY | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for VCY | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for VCY | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat VCY | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing VCY | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat VCY | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat VCY | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat VCY | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat VCY |
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| | | | Search Tocris compounds for VCY |
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 | | | VCY Proteins, Antibodies, CLIAs, and ELISAs |
| | | |  |  |  | | | | Search ThermoFisher Antibodies for VCY |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VCY |
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